A novel coronavirus and a broad range of viruses in Kenyan cave bats
Background and Methods: To investigate virus diversity in hot zones of probable pathogen spillover, 54 oral-fecal swabs were processed from five bat species collected from three cave systems in Kenya, using metagenome sequencing. Results: Viruses belonging to the Astroviridae, Circoviridae, Coronavi...
| Main Authors: | , , , , , , , , , , , , , , , |
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| Format: | Journal Article |
| Language: | Inglés |
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MDPI
2022
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| Subjects: | |
| Online Access: | https://hdl.handle.net/10568/126312 |
| _version_ | 1855516238750416896 |
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| author | Kamau, J. Ergunay, K. Webala, P.W. Justi, S.A. Bourke, B.P. Kamau, M.W. Hassell, James M. Chege, M.N. Mwaura, D.K. Simiyu, C. Kibiwot, S. Onyuok, S. Caicedo-Quiroga, L. Li, T. Zimmerman, D.M. Linton, Y.M. |
| author_browse | Bourke, B.P. Caicedo-Quiroga, L. Chege, M.N. Ergunay, K. Hassell, James M. Justi, S.A. Kamau, J. Kamau, M.W. Kibiwot, S. Li, T. Linton, Y.M. Mwaura, D.K. Onyuok, S. Simiyu, C. Webala, P.W. Zimmerman, D.M. |
| author_facet | Kamau, J. Ergunay, K. Webala, P.W. Justi, S.A. Bourke, B.P. Kamau, M.W. Hassell, James M. Chege, M.N. Mwaura, D.K. Simiyu, C. Kibiwot, S. Onyuok, S. Caicedo-Quiroga, L. Li, T. Zimmerman, D.M. Linton, Y.M. |
| author_sort | Kamau, J. |
| collection | Repository of Agricultural Research Outputs (CGSpace) |
| description | Background and Methods: To investigate virus diversity in hot zones of probable pathogen spillover, 54 oral-fecal swabs were processed from five bat species collected from three cave systems in Kenya, using metagenome sequencing. Results: Viruses belonging to the Astroviridae, Circoviridae, Coronaviridae, Dicistroviridae, Herpesviridae and Retroviridae were detected, with unclassified viruses. Retroviral sequences were prevalent; 74.1% of all samples were positive, with distinct correlations between virus, site and host bat species. Detected retroviruses comprised Myotis myotis, Myotis ricketti, Myotis daubentonii and Galidia endogenous retroviruses, murine leukemia virus-related virus and Rhinolophus ferrumequinum retrovirus (RFRV). A near-complete genome of a local RFRV strain with identical genome organization and 2.8% nucleotide divergence from the prototype isolate was characterized. Bat coronavirus sequences were detected with a prevalence of 24.1%, where analyses on the ORF1ab region revealed a novel alphacoronavirus lineage. Astrovirus sequences were detected in 25.9%of all samples, with considerable diversity. In 9.2% of the samples, other viruses including Actinidia yellowing virus 2, bat betaherpesvirus, Bole tick virus 4, Cyclovirus and Rhopalosiphum padi virus were identified. Conclusions: Further monitoring of bats across Kenya is essential to facilitate early recognition of possibly emergent zoonotic viruses. |
| format | Journal Article |
| id | CGSpace126312 |
| institution | CGIAR Consortium |
| language | Inglés |
| publishDate | 2022 |
| publishDateRange | 2022 |
| publishDateSort | 2022 |
| publisher | MDPI |
| publisherStr | MDPI |
| record_format | dspace |
| spelling | CGSpace1263122025-12-08T10:29:22Z A novel coronavirus and a broad range of viruses in Kenyan cave bats Kamau, J. Ergunay, K. Webala, P.W. Justi, S.A. Bourke, B.P. Kamau, M.W. Hassell, James M. Chege, M.N. Mwaura, D.K. Simiyu, C. Kibiwot, S. Onyuok, S. Caicedo-Quiroga, L. Li, T. Zimmerman, D.M. Linton, Y.M. coronavirinae chiroptera viruses biodiversity health virology infectious diseases Background and Methods: To investigate virus diversity in hot zones of probable pathogen spillover, 54 oral-fecal swabs were processed from five bat species collected from three cave systems in Kenya, using metagenome sequencing. Results: Viruses belonging to the Astroviridae, Circoviridae, Coronaviridae, Dicistroviridae, Herpesviridae and Retroviridae were detected, with unclassified viruses. Retroviral sequences were prevalent; 74.1% of all samples were positive, with distinct correlations between virus, site and host bat species. Detected retroviruses comprised Myotis myotis, Myotis ricketti, Myotis daubentonii and Galidia endogenous retroviruses, murine leukemia virus-related virus and Rhinolophus ferrumequinum retrovirus (RFRV). A near-complete genome of a local RFRV strain with identical genome organization and 2.8% nucleotide divergence from the prototype isolate was characterized. Bat coronavirus sequences were detected with a prevalence of 24.1%, where analyses on the ORF1ab region revealed a novel alphacoronavirus lineage. Astrovirus sequences were detected in 25.9%of all samples, with considerable diversity. In 9.2% of the samples, other viruses including Actinidia yellowing virus 2, bat betaherpesvirus, Bole tick virus 4, Cyclovirus and Rhopalosiphum padi virus were identified. Conclusions: Further monitoring of bats across Kenya is essential to facilitate early recognition of possibly emergent zoonotic viruses. 2022-12-17 2022-12-27T07:07:11Z 2022-12-27T07:07:11Z Journal Article https://hdl.handle.net/10568/126312 en Open Access MDPI Kamau, J., Ergunay, K., Webala, P.W., Justi, S.A., Bourke, B.P., Kamau, M.W., Hassell, J., Chege, M.N., Mwaura, D.K., Simiyu, C., Kibiwot, S., Onyuok, S., Caicedo-Quiroga, L., Li, T., Zimmerman, D.M. and Linton, Y.M. 2022. A novel coronavirus and a broad range of viruses in Kenyan cave bats. Viruses 14(12): 2820. |
| spellingShingle | coronavirinae chiroptera viruses biodiversity health virology infectious diseases Kamau, J. Ergunay, K. Webala, P.W. Justi, S.A. Bourke, B.P. Kamau, M.W. Hassell, James M. Chege, M.N. Mwaura, D.K. Simiyu, C. Kibiwot, S. Onyuok, S. Caicedo-Quiroga, L. Li, T. Zimmerman, D.M. Linton, Y.M. A novel coronavirus and a broad range of viruses in Kenyan cave bats |
| title | A novel coronavirus and a broad range of viruses in Kenyan cave bats |
| title_full | A novel coronavirus and a broad range of viruses in Kenyan cave bats |
| title_fullStr | A novel coronavirus and a broad range of viruses in Kenyan cave bats |
| title_full_unstemmed | A novel coronavirus and a broad range of viruses in Kenyan cave bats |
| title_short | A novel coronavirus and a broad range of viruses in Kenyan cave bats |
| title_sort | novel coronavirus and a broad range of viruses in kenyan cave bats |
| topic | coronavirinae chiroptera viruses biodiversity health virology infectious diseases |
| url | https://hdl.handle.net/10568/126312 |
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